grouper: Find groups of correlating samples

Description Usage Arguments Value Examples

View source: R/grouper.R

Description

Create groups of sample from a cor table with correlation >= cutoff

Usage

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grouper(corTable, cutoff = 0.59, s1 = "row_sample", s2 = "col_sample")

Arguments

corTable

Table of paiwise correlation between samples

cutoff

corrlation threshold for samples to be grouped together

s1

Name of first column that contains sample names

s2

Name of second column that contains sample names

Value

List of groups found in the cor table

Examples

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cor_test <- make_corLong(snps1 = test_snps, BrainTable1 = test_BrTable, ID_col1 = "Sample")
g <- grouper(cor_test)

snpsCalled_filter <- filter_called(snpsCalled_VCF)
snpsRNA <- make_snpsRNA(snpsGeno_VCF, snpsCalled_filter)
pd_simple <- pd_example[,1:4]
corLong_rna <- make_corLong(snpsRNA$snpsCalled, BrainTable1 = pd_simple, ID_col1 = "SAMPLE_ID")
groups_rna <- grouper(corLong_rna)

LieberInstitute/brainstorm_package documentation built on Dec. 17, 2021, 12:04 a.m.